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    15 repositories

    • SARS-COV-2_environments

      Public
      Dockerfile
      •
      MIT License
      •0•0•0•0•Updated Jan 5, 2025Jan 5, 2025

    • version_bumper

      Public
      Project to aid in managing repo versioning with gitflow
      Python
      •0•0•0•0•Updated Dec 4, 2024Dec 4, 2024

    • gpas-user-tools

      Public archive
      Collection of tools to help users upload, process and
      Python
      •
      MIT License
      •0•1•0•0•Updated Nov 27, 2024Nov 27, 2024

    • OCI-SuperDelete

      Public
      Delete all OCI resources in a compartment
      Python
      •
      Universal Permissive License v1.0
      •37•0•0•0•Updated Jun 17, 2024Jun 17, 2024

    • read-it-and-keep

      Public
      Read contamination removal
      C
      •
      MIT License
      •3•24•0•0•Updated Jan 24, 2024Jan 24, 2024

    • gpas-cli

      Public archive
      The CLI client for GPAS SC2
      Python
      •
      Other
      •2•5•26•0•Updated Nov 18, 2023Nov 18, 2023

    • sp3-oci-rm

      Public archive
      Resource Manager Stack and Deployment Scripts for building SP3 cluster on OCI
      HCL
      •4•0•0•0•Updated Mar 22, 2023Mar 22, 2023

    • gpas-testing

      Public
      Create perfect FASTQ files for the SARS-CoV-2 WHO lineages for use in testing
      Python
      •
      MIT License
      •0•1•0•0•Updated Mar 20, 2023Mar 20, 2023

    • gpas-uploader

      Public archive
      Sequencing data upload client for GPAS users
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•3•0•Updated Jun 23, 2022Jun 23, 2022

    • gpas_test_scripts

      Public
      Shell
      •0•0•0•0•Updated Jun 14, 2022Jun 14, 2022

    • nextflow

      Public
      A DSL for data-driven computational pipelines
      Groovy
      •
      Apache License 2.0
      •648•0•0•0•Updated Apr 6, 2022Apr 6, 2022

    • gpas-uploader-validate

      Public
      Python script that checks the Tags and collectionDate are correct in an upload CSV file
      Python
      •
      MIT License
      •0•0•0•0•Updated Mar 9, 2022Mar 9, 2022

    • viridian_workflow

      Public
      Python
      •
      MIT License
      •6•0•0•0•Updated Mar 3, 2022Mar 3, 2022

    • gpas-covid-testsets

      Public
      A series of SARS-CoV-2 development testsets for the different pipelines available in GPAS
      Jupyter Notebook
      •2•1•1•0•Updated Mar 1, 2022Mar 1, 2022

    • catsgo

      Public
      Command client of SP3 for fetch, run and download.
      Python
      •
      MIT License
      •2•0•0•0•Updated Dec 14, 2021Dec 14, 2021